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Protein

Malate dehydrogenase, chloroplastic

Gene

At3g47520

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes a reversible NAD-dependent dehydrogenase reaction involved in central metabolism and redox homeostasis between organelle compartments (Probable). Plays a key role in the metabolism of dark chloroplasts and non-green plastids. Essential for embryo viability (PubMed:24198233, PubMed:24453164). Plays an essential role in heterotrophic metabolism in embryos, and autotrophic metabolism in photosynthetic tissues as well (PubMed:24453164).1 Publication2 Publications

Catalytic activityi

(S)-malate + NAD+ = oxaloacetate + NADH.PROSITE-ProRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei115NADBy similarity1
Binding sitei162SubstrateBy similarity1
Binding sitei168SubstrateBy similarity1
Binding sitei175NADBy similarity1
Binding sitei200SubstrateBy similarity1
Binding sitei234SubstrateBy similarity1
Active sitei258Proton acceptorBy similarity1
Binding sitei309NADBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi89 – 95NADBy similarity7
Nucleotide bindingi198 – 200NADBy similarity3

GO - Molecular functioni

  • L-malate dehydrogenase activity Source: TAIR
  • NAD(P)+ transhydrogenase activity Source: TAIR

GO - Biological processi

  • carbohydrate metabolic process Source: InterPro
  • embryo development ending in seed dormancy Source: TAIR
  • malate metabolic process Source: InterPro
  • response to cold Source: TAIR
  • response to cytokinin Source: TAIR
  • tricarboxylic acid cycle Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Tricarboxylic acid cycle

Keywords - Ligandi

NAD

Enzyme and pathway databases

BioCyciARA:AT3G47520-MONOMER.
MetaCyc:AT3G47520-MONOMER.
ReactomeiR-ATH-70263. Gluconeogenesis.
R-ATH-71403. Citric acid cycle (TCA cycle).

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenase, chloroplasticCurated (EC:1.1.1.37)
Alternative name(s):
Chloroplastic malate dehydrogenase1 Publication
Short name:
Chloroplastic MDHCurated
Short name:
cpNAD-MDH1 Publication
Plastidic NAD-dependent malate dehydrogenaseCurated
Short name:
pNAD-MDHCurated
Gene namesi
Ordered Locus Names:At3g47520
ORF Names:F1P2.70
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G47520.

Subcellular locationi

GO - Cellular componenti

  • apoplast Source: TAIR
  • chloroplast Source: TAIR
  • chloroplast envelope Source: TAIR
  • chloroplast stroma Source: TAIR
  • membrane Source: TAIR
  • mitochondrion Source: TAIR
  • plastid Source: TAIR
  • plastid stroma Source: TAIR
  • stromule Source: TAIR
  • vacuolar membrane Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Plastid

Pathology & Biotechi

Disruption phenotypei

Embryonic lethality when homozygous due to embryo development arrest at globular stage.2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 80ChloroplastSequence analysisAdd BLAST80
ChainiPRO_000022414981 – 403Malate dehydrogenase, chloroplasticAdd BLAST323

Proteomic databases

PaxDbiQ9SN86.
PRIDEiQ9SN86.

Expressioni

Tissue specificityi

Expressed in rosette leaves (PubMed:20876337). Expressed in meristematic regions of roots and shoots, cotyledons, young leaves, trichomes, stamen, pollen, tapetum, gynoecium and ovules (PubMed:24198233).2 Publications

Developmental stagei

During pollen development, expressed in mature pollen grains and early in pollen-tube growth. Not expressed in immature pollen grains and fully grown pollen tubes (PubMed:24198233). During embryo development, expressed from the heart stage to mature embryo. Not expressed at the beginning of embryo development up to the globular stage (PubMed:24198233, PubMed:24453164).2 Publications

Gene expression databases

GenevisibleiQ9SN86. AT.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

BioGridi9226. 2 interactors.
STRINGi3702.AT3G47520.1.

Structurei

3D structure databases

ProteinModelPortaliQ9SN86.
SMRiQ9SN86.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the LDH/MDH superfamily. MDH type 1 family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiKOG1494. Eukaryota.
COG0039. LUCA.
HOGENOMiHOG000213792.
InParanoidiQ9SN86.
KOiK00026.
OMAiNANIVKG.
OrthoDBiEOG093609FL.
PhylomeDBiQ9SN86.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
3.90.110.10. 1 hit.
InterProiIPR001557. L-lactate/malate_DH.
IPR022383. Lactate/malate_DH_C.
IPR001236. Lactate/malate_DH_N.
IPR015955. Lactate_DH/Glyco_Ohase_4_C.
IPR001252. Malate_DH_AS.
IPR010097. Malate_DH_type1.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR11540. PTHR11540. 1 hit.
PfamiPF02866. Ldh_1_C. 1 hit.
PF00056. Ldh_1_N. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.
SSF56327. SSF56327. 1 hit.
TIGRFAMsiTIGR01772. MDH_euk_gproteo. 1 hit.
PROSITEiPS00068. MDH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q9SN86-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MATATSASLF STVSSSYSKA SSIPHSRLQS VKFNSVPSFT GLKSTSLISG
60 70 80 90 100
SDSSSLAKTL RGSVTKAQTS DKKPYGFKIN ASYKVAVLGA AGGIGQPLSL
110 120 130 140 150
LIKMSPLVST LHLYDIANVK GVAADLSHCN TPSQVRDFTG PSELADCLKD
160 170 180 190 200
VNVVVIPAGV PRKPGMTRDD LFNINANIVK TLVEAVAENC PNAFIHIISN
210 220 230 240 250
PVNSTVPIAA EVLKKKGVYD PKKLFGVTTL DVVRANTFVS QKKNLKLIDV
260 270 280 290 300
DVPVIGGHAG ITILPLLSKT KPSVNFTDEE IQELTVRIQN AGTEVVDAKA
310 320 330 340 350
GAGSATLSMA YAAARFVESS LRALDGDGDV YECSFVESTL TDLPFFASRV
360 370 380 390 400
KIGKNGLEAV IESDLQGLTE YEQKALEALK VELKASIDKG VAFANKPAAA

AAN
Length:403
Mass (Da):42,406
Last modified:May 1, 2000 - v1
Checksum:i65B54DE66392D229
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti57A → T in CAA74320 (PubMed:9774405).Curated1
Sequence conflicti66K → N in CAA74320 (PubMed:9774405).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y13987 mRNA. Translation: CAA74320.1.
AL132955 Genomic DNA. Translation: CAB61978.1.
CP002686 Genomic DNA. Translation: AEE78292.1.
AY128281 mRNA. Translation: AAM91090.1.
BT000621 mRNA. Translation: AAN18188.1.
PIRiT45712.
T51862.
RefSeqiNP_190336.1. NM_114620.3.
UniGeneiAt.20474.

Genome annotation databases

EnsemblPlantsiAT3G47520.1; AT3G47520.1; AT3G47520.
GeneIDi823906.
GrameneiAT3G47520.1; AT3G47520.1; AT3G47520.
KEGGiath:AT3G47520.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y13987 mRNA. Translation: CAA74320.1.
AL132955 Genomic DNA. Translation: CAB61978.1.
CP002686 Genomic DNA. Translation: AEE78292.1.
AY128281 mRNA. Translation: AAM91090.1.
BT000621 mRNA. Translation: AAN18188.1.
PIRiT45712.
T51862.
RefSeqiNP_190336.1. NM_114620.3.
UniGeneiAt.20474.

3D structure databases

ProteinModelPortaliQ9SN86.
SMRiQ9SN86.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi9226. 2 interactors.
STRINGi3702.AT3G47520.1.

Proteomic databases

PaxDbiQ9SN86.
PRIDEiQ9SN86.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G47520.1; AT3G47520.1; AT3G47520.
GeneIDi823906.
GrameneiAT3G47520.1; AT3G47520.1; AT3G47520.
KEGGiath:AT3G47520.

Organism-specific databases

TAIRiAT3G47520.

Phylogenomic databases

eggNOGiKOG1494. Eukaryota.
COG0039. LUCA.
HOGENOMiHOG000213792.
InParanoidiQ9SN86.
KOiK00026.
OMAiNANIVKG.
OrthoDBiEOG093609FL.
PhylomeDBiQ9SN86.

Enzyme and pathway databases

BioCyciARA:AT3G47520-MONOMER.
MetaCyc:AT3G47520-MONOMER.
ReactomeiR-ATH-70263. Gluconeogenesis.
R-ATH-71403. Citric acid cycle (TCA cycle).

Miscellaneous databases

PROiQ9SN86.

Gene expression databases

GenevisibleiQ9SN86. AT.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
3.90.110.10. 1 hit.
InterProiIPR001557. L-lactate/malate_DH.
IPR022383. Lactate/malate_DH_C.
IPR001236. Lactate/malate_DH_N.
IPR015955. Lactate_DH/Glyco_Ohase_4_C.
IPR001252. Malate_DH_AS.
IPR010097. Malate_DH_type1.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR11540. PTHR11540. 1 hit.
PfamiPF02866. Ldh_1_C. 1 hit.
PF00056. Ldh_1_N. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.
SSF56327. SSF56327. 1 hit.
TIGRFAMsiTIGR01772. MDH_euk_gproteo. 1 hit.
PROSITEiPS00068. MDH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiMDHP_ARATH
AccessioniPrimary (citable) accession number: Q9SN86
Secondary accession number(s): O81844
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 21, 2006
Last sequence update: May 1, 2000
Last modified: November 30, 2016
This is version 114 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.